- The epilogue of Ikaruga, wherein Shinra and Kagari disable their respective ships' Power Limiter to destroy the Stone-Like. Furthermore, the Computer Voice in the Ikaruga and Ginkei that has been speaking throughout the game cautions its pilots for their actions, yet beneath its surface, the voice shows it has all the telltale signs of a Benevolent A.I.:
"Release the restrain device. Using the released power may result the possibility of destruction of the ship.""You did your best. Was I helpful for you?""I am deeply grateful to you."
- Even more so when you realize what happens during the last barrage: neither Shinra or Kagari knew if their Heroic Sacrifice worked or not - the Ikaruga and Ginkei are annihilated mere seconds before the Stone-Like explodes.
- Just the fact this game provides a Bittersweet Ending: with the Stone-Like destroyed, the Eternal Recurrence Stable Time Loop established at the Downer Ending of Radiant Silvergun has finally been averted. Humanity is no longer at the mercy of the Artifact of Doom plaguing them for countless cycles. Though Shinra and Kagari die to achieve this, they Ascend to a Higher Plane of Existence, knowing humanity is all the better without some all-powerful force manipulating them.
- The Recurring Riff heard in the credits as a melancholic, sad and somber tune only adds to how the story comes full circle.